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NC_026610.2__YP_009126552.1__VC55_gp76__00076

Bact-Vir

NC_026610.2__YP_009126552.1__VC55_gp76__00076

Identity

Accession:
NC_026610 ↗
Kingdom:
phage

Quality

74.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_VpKK5

TaxID: 1538804

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 1-65
PDB
D2 medium residues 84-154
PDB
Domain cluster: representative
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4dkjA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.62 45.0 3.04e-01 78.9% 62.8%
3wa7A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 48.0 2.93e-01 94.4% 80.7%
6j09A02 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.56 34.0 3.32e-01 100.0% 55.1%
2if7B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 33.0 3.13e-01 71.8% 47.1%
5ib9A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.53 44.0 3.06e-01 98.6% 35.8%
7uclA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 43.0 3.87e-01 93.0% 97.1%
2avxA00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.53 42.0 3.39e-01 97.2% 44.4%
5kfzA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.52 38.0 3.25e-01 80.3% 87.8%
3guxA00 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.52 44.0 3.10e-01 98.6% 35.2%
6ap4B02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.51 40.0 3.27e-01 87.3% 92.9%
3ktwB00 3.30.56.30 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › Signal recognition particle, SRP19-like subunit 0.51 33.0 3.09e-01 84.5% 51.6%
4jphB00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.51 34.0 3.06e-01 71.8% 66.7%
3e0jB00 3.90.1030.20 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › DNA polymerase delta, p66 (Cdc27) subunit, wHTH domain 0.50 43.0 3.51e-01 100.0% 62.2%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4015453 212.1.1.12 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › UPF0029 0.68 60.0 4.95e-01 100.0% 98.5%
3593808 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.68 35.0 3.07e-01 100.0% 36.0%
4595166 5076.2.1.0 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ 0.60 42.0 2.92e-01 73.2% 57.3%
3469919 230.2.1.1 ↗ a+b two layers › T-fold › Ribosomal protein S3-C › Ribosomal protein S3-C › Ribosomal_S3_C 0.59 44.0 4.40e-01 81.7% 78.7%
4799073 309.1.1.4 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_C 0.57 48.0 4.41e-01 100.0% 70.4%
4221575 4099.1.1.52 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › FTA2 0.57 48.0 4.30e-01 98.6% 86.7%
3214850 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.55 46.0 3.02e-01 98.6% 66.6%
3688597 2011.2.1.0 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like 0.55 42.0 3.20e-01 85.9% 78.7%
2867998 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.54 42.0 3.82e-01 88.7% 95.2%
3517620 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.54 45.0 3.04e-01 100.0% 73.8%
3501316 101.1.2.271 ↗ alpha arrays › HTH › HTH › winged helix domain › B-block_TFIIIC 0.54 39.0 3.38e-01 77.5% 71.8%
3540722 304.44.1.5 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › JAG1 0.53 46.0 3.98e-01 100.0% 70.4%
5041736 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 32.0 3.21e-01 87.3% 58.7%
3601299 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.52 45.0 3.85e-01 100.0% 69.6%
3983446 101.1.2.84 ↗ alpha arrays › HTH › HTH › winged helix domain › CaiF_GrlA 0.52 38.0 3.47e-01 78.9% 56.0%
3832526 109.4.1.1860 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, Eplus_motif, E_motif 0.52 41.0 2.53e-01 88.7% 13.4%
3495920 331.2.1.0 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.52 44.0 4.02e-01 100.0% 82.0%
4309637 1036.1.1.1 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.51 37.0 3.56e-01 83.1% 65.5%
4399128 7581.1.1.30 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like › Thiolase_N, ketoacyl-synt, Thiolase_C 0.51 44.0 2.85e-01 100.0% 82.4%
3367574 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.51 38.0 2.84e-01 91.5% 29.2%
3224634 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.51 42.0 2.78e-01 100.0% 64.3%
3886540 304.151.1.5 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase › JAG1 0.51 44.0 3.58e-01 100.0% 56.4%
None — 0.51 40.0 2.27e-01 100.0% 8.2%
4328953 3016.1.1.11 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › SelA 0.50 40.0 3.67e-01 94.4% 66.0%